Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold412
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4645160
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 30 of 32
Found at i:4319773 original size:32 final size:30
Alignment explanation
Indices: 4319736--4319819 Score: 80
Period size: 32 Copynumber: 2.7 Consensus size: 30
4319726 TTGAGTTATT
4319736 TTTGAGTTCGAGTCATTTTAGATTCAAGTCA
1 TTTGAGTTCGAGTCATTTTAGATTCAA-TCA
* * *
4319767 CTTTGAGTTCG-GATTATTTTAAGTTTCGATCA
1 -TTTGAGTTCGAG-TCATTTT-AGATTCAATCA
*
4319799 TTTCGAATTCGAGTCATTTTA
1 TTT-GAGTTCGAGTCATTTTA
4319820 AATTTTGGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
31 5 0.12
32 31 0.72
33 7 0.16
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.45
Consensus pattern (30 bp):
TTTGAGTTCGAGTCATTTTAGATTCAATCA
Found at i:4319823 original size:16 final size:16
Alignment explanation
Indices: 4319742--4319823 Score: 51
Period size: 16 Copynumber: 5.1 Consensus size: 16
4319732 TATTTTTGAG
*
4319742 TTCGAGTCATTTTAGA
1 TTCGAGTCATTTTAAA
* * * *
4319758 TTCAAGTCACTTTGAG
1 TTCGAGTCATTTTAAA
* *
4319774 TTCG-GATTATTTTAAGT
1 TTCGAG-TCATTTTAA-A
**
4319791 TTCGA-TCATTTCGAA
1 TTCGAGTCATTTTAAA
4319806 TTCGAGTCATTTTAAA
1 TTCGAGTCATTTTAAA
4319822 TT
1 TT
4319824 TTGGTTATTT
Statistics
Matches: 46, Mismatches: 16, Indels: 8
0.66 0.23 0.11
Matches are distributed among these distances:
15 6 0.13
16 36 0.78
17 4 0.09
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (16 bp):
TTCGAGTCATTTTAAA
Found at i:4323055 original size:13 final size:13
Alignment explanation
Indices: 4323037--4323061 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4323027 CAAAGATCAG
4323037 TGTATCGATACAA
1 TGTATCGATACAA
4323050 TGTATCGATACA
1 TGTATCGATACA
4323062 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4323128 original size:19 final size:18
Alignment explanation
Indices: 4323104--4323166 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
4323094 TAGCTTAAAT
4323104 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
4323123 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
4323136 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
4323155 TGTATCGATACA
1 TGTATCGATACA
4323167 TTGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:4323141 original size:13 final size:13
Alignment explanation
Indices: 4323123--4323179 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
4323113 ACAAAACTTA
4323123 TGTATCGATACAT
1 TGTATCGATACAT
4323136 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
4323154 ATGTATCGATACAT
1 -TGTATCGATACAT
4323168 TGTATCGATACA
1 TGTATCGATACA
4323180 AATCGTTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4323143 original size:32 final size:32
Alignment explanation
Indices: 4323102--4323181 Score: 151
Period size: 32 Copynumber: 2.5 Consensus size: 32
4323092 AGTAGCTTAA
4323102 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
*
4323134 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTATGTATCGATAC
4323166 ATTGTATCGATACAAA
1 ATTGTATCGATACAAA
4323182 TCGTTGAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (32 bp):
ATTGTATCGATACAAAACTTATGTATCGATAC
Found at i:4324597 original size:16 final size:15
Alignment explanation
Indices: 4324579--4324628 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 15
4324569 ATGAAGGTAT
4324579 TTTTTAAATATATTA
1 TTTTTAAATATATTA
4324594 TTTTTAAATTATAATTA
1 TTTTTAAA-TAT-ATTA
* *
4324611 CTTATAAATAT-TTA
1 TTTTTAAATATATTA
4324625 TTTT
1 TTTT
4324629 GATTAGTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
14 5 0.17
15 8 0.28
16 6 0.21
17 10 0.34
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTTAAATATATTA
Found at i:4324804 original size:14 final size:15
Alignment explanation
Indices: 4324785--4324813 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4324775 GTTGGCATGA
4324785 CATATATAAC-GGGG
1 CATATATAACAGGGG
4324799 CATATATAACAGGGG
1 CATATATAACAGGGG
4324814 TAGTGTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.21
Consensus pattern (15 bp):
CATATATAACAGGGG
Found at i:4324989 original size:2 final size:2
Alignment explanation
Indices: 4324982--4325029 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
4324972 AAACTTGTAG
*
4324982 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4325024 AT AT AT
1 AT AT AT
4325030 TGTTTTCATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4325239 original size:2 final size:2
Alignment explanation
Indices: 4325232--4325260 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4325222 TATTGGACTT
4325232 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4325261 GGGGTGTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4327493 original size:16 final size:16
Alignment explanation
Indices: 4327456--4327494 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4327446 ATTGTTTGGG
**
4327456 TCATTTCGAGTTCGGA
1 TCATTTCGAGTTCAAA
4327472 TCATTTCGAGTTCAAA
1 TCATTTCGAGTTCAAA
*
4327488 TTATTTC
1 TCATTTC
4327495 AGATTCGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.44
Consensus pattern (16 bp):
TCATTTCGAGTTCAAA
Found at i:4328637 original size:22 final size:21
Alignment explanation
Indices: 4328600--4328642 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
4328590 CTGTAAAAAA
4328600 TTAAAATATAAAAAATATTTAT
1 TTAAAATATAAAAAAT-TTTAT
4328622 TTAAAATA-ATAAAAATTTTAT
1 TTAAAATATA-AAAAATTTTAT
4328643 AAATGTAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAAATATAAAAAATTTTAT
Found at i:4328703 original size:12 final size:13
Alignment explanation
Indices: 4328681--4328706 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4328671 ATCTCAAAAG
4328681 TTTTAGTTTTTTT
1 TTTTAGTTTTTTT
4328694 TTTTAGTTTTTTT
1 TTTTAGTTTTTTT
4328707 AATGAGTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (13 bp):
TTTTAGTTTTTTT
Found at i:4330735 original size:20 final size:17
Alignment explanation
Indices: 4330694--4330729 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4330684 TATTTATAGA
*
4330694 TTATTATTTTTTTATAT
1 TTATTATTTTTTTAAAT
4330711 TTATTATTTTTATTAAAT
1 TTATTATTTTT-TTAAAT
4330729 T
1 T
4330730 GATATTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTATTTTTTTAAAT
Found at i:4333261 original size:15 final size:14
Alignment explanation
Indices: 4333220--4333260 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
4333210 AATTTATTTG
4333220 TTATTTTATTTTATT
1 TTATTTTATTTTA-T
4333235 TTATTTTATTTTAT
1 TTATTTTATTTTAT
4333249 TTATTTTATTTT
1 TTATTTTATTTT
4333261 TTATTTTCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTATTTTATTTTAT
Found at i:4333282 original size:5 final size:5
Alignment explanation
Indices: 4333220--4333260 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
4333210 AATTTATTTG
4333220 TTATT TTATT TTATT TTATT TTATT TTA-T TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
4333261 TTATTTTCGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:4334154 original size:13 final size:12
Alignment explanation
Indices: 4334111--4334159 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
4334101 GTCTAAACTA
*
4334111 TTTTCTCCTATT
1 TTTTCTCTTATT
4334123 TTTT-TCTTA-T
1 TTTTCTCTTATT
4334133 TTTTCTCTTATT
1 TTTTCTCTTATT
4334145 TTTCTCTCTT-TT
1 TTT-TCTCTTATT
4334157 TTT
1 TTT
4334160 GCTGAGTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 5 0.15
11 9 0.27
12 13 0.39
13 6 0.18
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTCTTATT
Found at i:4334158 original size:11 final size:11
Alignment explanation
Indices: 4334111--4334151 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
4334101 GTCTAAACTA
*
4334111 TTTTCTCCTAT
1 TTTTCTCTTAT
*
4334122 TTTTTTCTTAT
1 TTTTCTCTTAT
4334133 TTTTCTCTTAT
1 TTTTCTCTTAT
4334144 TTTTCTCT
1 TTTTCTCT
4334152 CTTTTTTTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTCTCTTAT
Found at i:4334867 original size:166 final size:166
Alignment explanation
Indices: 4334529--4334995 Score: 400
Period size: 166 Copynumber: 2.8 Consensus size: 166
4334519 TTAATAACAA
* * * ** *
4334529 TATTAGATATATTTTAAAAAT-TTTAACTC-AAGAAAAATCTCCCTGAAAATATTTATGGAGTAA
1 TATTAGATAAATTTCAAAAATATTAAAC-CAAAG-AAAATC-CCCCAAAAATATTTATGAAGT-A
* * * * * * * * *
4334592 AAAAACTAGGTTTTTTGAAAAATATGGAGATTT-CAA-AAAAAATTC-AAAACTCATGAAACTAA
62 AAAAACTCGATTTTTTCAAAAA-ATGGACATTTAAAAGAAAAAAATCAAAAACTTATGAAAATGA
* * * * *
4334654 ATGAATTTTTCA-AATCTGA-TTTACT-AGAAGTAT-AATGATAA
126 ATGAATTTTTCATAA-CT-ATTTTAATGA-AAAT-TCCATGACAT
* *** *
4334695 TATTAGATAAATTTTAAAAATATTAAATTGAAGAAAATCCTCCTAAAAATATTTATGAAGTAAAA
1 TATTAGATAAATTTCAAAAATATTAAACCAAAGAAAATCC-CCCAAAAATATTTATGAAGTAAAA
* * *
4334760 AACTC-AGTTTTTTCAGATAAA-GG-CATTTTAAAGAAAAAAATCCAAAACTTATGAAAATGAAT
65 AACTCGA-TTTTTTCA-AAAAATGGACATTTAAAAGAAAAAAATCAAAAACTTATGAAAATGAAT
*
4334822 TAATTTTTCATAACTATTTTAATGAAAATTCCATGACAT
128 GAATTTTTCATAACTATTTTAATGAAAATTCCATGACAT
* * * * * *
4334861 TATTAGATACATTTCAAAAATTTTAAACCAAAGAAAATCCCCCCAAAATATTTATGGATTAGAAA
1 TATTAGATAAATTTCAAAAATATTAAACCAAAGAAAATCCCCCAAAAATATTTATGAAGTAAAAA
* * *
4334926 ACTCGATTTTTTGAAAAAATGGAGATTTAAAAGAAAAAAATCAAAAACTTATGAACATGAATGAA
66 ACTCGATTTTTTCAAAAAATGGACATTTAAAAGAAAAAAATCAAAAACTTATGAAAATGAATGAA
4334991 TTTTT
131 TTTTT
4334996 AAAATTTATT
Statistics
Matches: 246, Mismatches: 40, Indels: 30
0.78 0.13 0.09
Matches are distributed among these distances:
163 4 0.02
164 8 0.03
165 60 0.24
166 164 0.67
167 10 0.04
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (166 bp):
TATTAGATAAATTTCAAAAATATTAAACCAAAGAAAATCCCCCAAAAATATTTATGAAGTAAAAA
ACTCGATTTTTTCAAAAAATGGACATTTAAAAGAAAAAAATCAAAAACTTATGAAAATGAATGAA
TTTTTCATAACTATTTTAATGAAAATTCCATGACAT
Found at i:4336293 original size:16 final size:16
Alignment explanation
Indices: 4336274--4336307 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4336264 TATATATCAA
4336274 TTTTTTTT-GTAAGAT
1 TTTTTTTTCGTAAGAT
*
4336289 TTTTTTTTCGTAATAT
1 TTTTTTTTCGTAAGAT
4336305 TTT
1 TTT
4336308 ACAAGTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.18, C:0.03, G:0.09, T:0.71
Consensus pattern (16 bp):
TTTTTTTTCGTAAGAT
Found at i:4336954 original size:27 final size:28
Alignment explanation
Indices: 4336902--4336955 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
4336892 AGCAATGATC
* *
4336902 AATTTTCTTTAATTTAGTTGTTATTTTT
1 AATTTTCTTTAATATAGTTGTAATTTTT
4336930 AATTTT-TTTAATAATAGTT-TAATTTT
1 AATTTTCTTTAAT-ATAGTTGTAATTTT
4336956 ATTCAAGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.65
Consensus pattern (28 bp):
AATTTTCTTTAATATAGTTGTAATTTTT
Found at i:4338104 original size:31 final size:31
Alignment explanation
Indices: 4338060--4338119 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
4338050 TCTTAGGCTA
* * *
4338060 ATTTTGGGATATTTTTATGTGTTTTAGATCT
1 ATTTTGGGATATTTTCAAGCGTTTTAGATCT
4338091 ATTTTGGTG-TATTTTCAAGCGTTTTAGAT
1 ATTTTGG-GATATTTTCAAGCGTTTTAGAT
4338120 TGTTTTAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.20, C:0.05, G:0.20, T:0.55
Consensus pattern (31 bp):
ATTTTGGGATATTTTCAAGCGTTTTAGATCT
Found at i:4341163 original size:2 final size:2
Alignment explanation
Indices: 4341158--4341200 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
4341148 AGTATTTTGT
*
4341158 TA TA TA TA TA TA TA TC TA TA -A TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4341199 TA
1 TA
4341201 AAAGCACGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4341559 original size:18 final size:19
Alignment explanation
Indices: 4341533--4341577 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
4341523 CTTTATATTC
*
4341533 AATATATAAAATTTTAT-A
1 AATAAATAAAATTTTATGA
*
4341551 AATAAATAAATTTTTATGA
1 AATAAATAAAATTTTATGA
*
4341570 TATAAATA
1 AATAAATA
4341578 TTTTCTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
AATAAATAAAATTTTATGA
Found at i:4342122 original size:31 final size:30
Alignment explanation
Indices: 4342042--4342127 Score: 82
Period size: 31 Copynumber: 2.8 Consensus size: 30
4342032 TATAAACAGA
* * *
4342042 AATAGTAATTTTTATTTAACATACTTTTTTAT
1 AATA-TAATATTTATTTTACA-AGTTTTTTAT
*
4342074 AATATAATATTTATTTTATAAGTTTTTTAT
1 AATATAATATTTATTTTACAAGTTTTTTAT
* * *
4342104 TATTTAATTTTTATTTTTACAAGT
1 AATATAATATTTA-TTTTACAAGT
4342128 ATAATATGAT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
30 19 0.42
31 22 0.49
32 4 0.09
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (30 bp):
AATATAATATTTATTTTACAAGTTTTTTAT
Found at i:4342588 original size:2 final size:2
Alignment explanation
Indices: 4342581--4342607 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4342571 AATCTCCGAT
4342581 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
4342608 TAATTCGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4346144 original size:30 final size:30
Alignment explanation
Indices: 4346110--4346184 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
4346100 TTATTTTTAT
*
4346110 ACAAAACTAGTACTTTAAGGGCTTAATTAG
1 ACAAAACTAGTACTTTAAGGACTTAATTAG
* * * *
4346140 ACAAAAATACTACTTTACGGATTTAATTAG
1 ACAAAACTAGTACTTTAAGGACTTAATTAG
*
4346170 ATAAAACTAGTACTT
1 ACAAAACTAGTACTT
4346185 CCAGGGTTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (30 bp):
ACAAAACTAGTACTTTAAGGACTTAATTAG
Found at i:4349114 original size:35 final size:35
Alignment explanation
Indices: 4349068--4349140 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
4349058 TACAATCATC
4349068 ATTTAGAGGTGATTTTCAGTAGATTTAGGATTTAA
1 ATTTAGAGGTGATTTTCAGTAGATTTAGGATTTAA
4349103 ATTTAGAGGTGATTTTCAGTAGATTTAGGATTTAA
1 ATTTAGAGGTGATTTTCAGTAGATTTAGGATTTAA
4349138 ATT
1 ATT
4349141 CTAACACCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.32, C:0.03, G:0.22, T:0.44
Consensus pattern (35 bp):
ATTTAGAGGTGATTTTCAGTAGATTTAGGATTTAA
Found at i:4352758 original size:2 final size:2
Alignment explanation
Indices: 4352751--4352792 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
4352741 GTTATAAACA
* *
4352751 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AA AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4352792 A
1 A
4352793 CATTTGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4353505 original size:27 final size:28
Alignment explanation
Indices: 4353475--4353527 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
4353465 TTTTAAATTT
4353475 ATTTATATTTAT-AAATA-AATTATTTTA
1 ATTTAT-TTTATAAAATATAATTATTTTA
*
4353502 ATTTATTTTTTAAAATATAATTATTT
1 ATTTATTTTATAAAATATAATTATTT
4353528 ATTTAATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 11 0.48
28 8 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
ATTTATTTTATAAAATATAATTATTTTA
Found at i:4353730 original size:3 final size:3
Alignment explanation
Indices: 4353724--4353764 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
4353714 TTAACATGCT
4353724 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4353765 TTGTCTAAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4354285 original size:17 final size:17
Alignment explanation
Indices: 4354263--4354295 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4354253 GAATAATAAG
4354263 ATAAATTTTTTATTTAA
1 ATAAATTTTTTATTTAA
4354280 ATAAATTTTTTATTTA
1 ATAAATTTTTTATTTA
4354296 TAAAATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATAAATTTTTTATTTAA
Found at i:4354460 original size:19 final size:19
Alignment explanation
Indices: 4354436--4354474 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
4354426 TTTCCAGTGA
4354436 AAGTTCGAACCAAGAGTTC
1 AAGTTCGAACCAAGAGTTC
4354455 AAGTTCGAACCAAGAGTTC
1 AAGTTCGAACCAAGAGTTC
4354474 A
1 A
4354475 GTAAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (19 bp):
AAGTTCGAACCAAGAGTTC
Found at i:4365632 original size:13 final size:13
Alignment explanation
Indices: 4365614--4365638 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4365604 CTTGTTATAC
4365614 TAGCCAAATATTT
1 TAGCCAAATATTT
4365627 TAGCCAAATATT
1 TAGCCAAATATT
4365639 ACGATCTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
TAGCCAAATATTT
Found at i:4366931 original size:27 final size:25
Alignment explanation
Indices: 4366875--4366924 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
4366865 ACGGTAATAA
*
4366875 ATATATTTAAAAGATTTTTTTTATC
1 ATATATTTAAAAAATTTTTTTTATC
*
4366900 ATATATTTAAAAAATTATATTTTAT
1 ATATATTTAAAAAATT-TTTTTTAT
4366925 ATTTATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (25 bp):
ATATATTTAAAAAATTTTTTTTATC
Found at i:4368002 original size:26 final size:24
Alignment explanation
Indices: 4367967--4368075 Score: 69
Period size: 25 Copynumber: 4.3 Consensus size: 24
4367957 ATTTAAAATC
* *
4367967 AAATAAAATAAAATTTTAATAATATT
1 AAATATAATAAAATTAT-ATAATA-T
*
4367993 AAATATAATATAATTATATAATAT
1 AAATATAATAAAATTATATAATAT
*
4368017 AAAAATAATATAAAAATTA-A-AATAT
1 AAATAT-A-AT-AAAATTATATAATAT
* * *
4368042 AAATTAAAAATATAATTAATATTATAT
1 AAA-T-ATAATAAAATT-ATATAATAT
4368069 AAATATA
1 AAATATA
4368076 TAACTTCAAG
Statistics
Matches: 65, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
24 11 0.17
25 20 0.31
26 20 0.31
27 14 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
AAATATAATAAAATTATATAATAT
Found at i:4368013 original size:13 final size:13
Alignment explanation
Indices: 4367995--4368078 Score: 57
Period size: 13 Copynumber: 6.5 Consensus size: 13
4367985 ATAATATTAA
4367995 ATATAATATAATT
1 ATATAATATAATT
4368008 ATATAATATAA--
1 ATATAATATAATT
* **
4368019 AAATAATATAAAA
1 ATATAATATAATT
*
4368032 ATTAAAATATAAATT
1 A-TATAATAT-AATT
*
4368047 A-AAAATATAATT
1 ATATAATATAATT
* *
4368059 AATATTATATAAAT
1 -ATATAATATAATT
4368073 ATATAA
1 ATATAA
4368079 CTTCAAGTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
11 10 0.18
12 4 0.07
13 25 0.45
14 14 0.25
15 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATATAATATAATT
Found at i:4368024 original size:11 final size:11
Alignment explanation
Indices: 4367984--4368033 Score: 55
Period size: 11 Copynumber: 4.3 Consensus size: 11
4367974 ATAAAATTTT
4367984 AATAATATTAAA
1 AATAATA-TAAA
*
4367996 TATAATATAATTA
1 AATAATATAA--A
*
4368009 TATAATATAAA
1 AATAATATAAA
4368020 AATAATATAAA
1 AATAATATAAA
4368031 AAT
1 AAT
4368034 TAAAATATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
11 17 0.50
12 6 0.18
13 11 0.32
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATAATATAAA
Found at i:4379032 original size:7 final size:7
Alignment explanation
Indices: 4379020--4379089 Score: 56
Period size: 7 Copynumber: 10.0 Consensus size: 7
4379010 TTTCTAAATT
4379020 TATAAAA
1 TATAAAA
4379027 TATAAAA
1 TATAAAA
*
4379034 TAT-TAA
1 TATAAAA
4379040 TAT-AAA
1 TATAAAA
4379046 TATAAAA
1 TATAAAA
*
4379053 TATTTTAAA
1 TA--TAAAA
4379062 TAT-AAA
1 TATAAAA
**
4379068 TATATTA
1 TATAAAA
4379075 TAATAAAA
1 T-ATAAAA
4379083 TATAAAA
1 TATAAAA
4379090 ACGATGACTA
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
6 16 0.31
7 24 0.47
8 5 0.10
9 6 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (7 bp):
TATAAAA
Found at i:4379047 original size:6 final size:6
Alignment explanation
Indices: 4379024--4379088 Score: 50
Period size: 6 Copynumber: 11.5 Consensus size: 6
4379014 TAAATTTATA
* * *
4379024 AAATAT AAAATAT TAATAT AAATAT AAA-AT -ATTTT AAATAT AAATAT
1 AAATAT -AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT
*
4379071 -ATTAT -AATA- AAATAT AAA
1 AAATAT AAATAT AAATAT AAA
4379089 AACGATGACT
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
4 1 0.02
5 14 0.30
6 25 0.54
7 6 0.13
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
AAATAT
Found at i:4379070 original size:15 final size:15
Alignment explanation
Indices: 4379014--4379086 Score: 58
Period size: 15 Copynumber: 4.5 Consensus size: 15
4379004 TATTTATTTC
* *
4379014 TAAATTTATAAAATA
1 TAAATATATTAAATA
4379029 TAAAATATTAATATAAATA
1 T-AAATA-T-AT-TAAATA
*
4379048 TAAAATATTTTAAATA
1 T-AAATATATTAAATA
4379064 TAAATATATTATAATA
1 TAAATATATTA-AATA
4379080 -AAATATA
1 TAAATATA
4379087 AAAACGATGA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
15 17 0.35
16 15 0.31
17 2 0.04
18 3 0.06
19 12 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAATATATTAAATA
Found at i:4382465 original size:27 final size:27
Alignment explanation
Indices: 4382427--4382510 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
4382417 CTTTTAGTTT
*
4382427 TTTTTTTATGTTTTAATTGACTTTTAA
1 TTTTTTTGTGTTTTAATTGACTTTTAA
*
4382454 TTTTTTTGTGTTTTAGTTGACTTTTAA
1 TTTTTTTGTGTTTTAATTGACTTTTAA
4382481 TTTCATTTTGTGTTTT-ATTGACTTTTAA
1 TTT--TTTTGTGTTTTAATTGACTTTTAA
4382509 TT
1 TT
4382511 CCTTAGTTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
27 28 0.54
28 13 0.25
29 11 0.21
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.67
Consensus pattern (27 bp):
TTTTTTTGTGTTTTAATTGACTTTTAA
Found at i:4388397 original size:15 final size:13
Alignment explanation
Indices: 4388364--4388391 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4388354 ATGATTTAAG
4388364 TTATTTTTTAAAA
1 TTATTTTTTAAAA
4388377 TTATTTTTTAAAA
1 TTATTTTTTAAAA
4388390 TT
1 TT
4388392 GTATTTCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTTTTAAAA
Found at i:4391154 original size:21 final size:19
Alignment explanation
Indices: 4391130--4391185 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 19
4391120 TAAAGTCTTG
4391130 TAAAAATTAAAAAAATTTAAT
1 TAAAAATTAAAAAAA--TAAT
* *
4391151 T-AAAATATATAAAAATAGT
1 TAAAAAT-TAAAAAAATAAT
4391170 TATAAAATTAAAAAAA
1 TA-AAAATTAAAAAAA
4391186 ATATTTTGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 4 0.14
20 12 0.41
21 13 0.45
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
TAAAAATTAAAAAAATAAT
Found at i:4392004 original size:12 final size:12
Alignment explanation
Indices: 4391973--4392006 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4391963 TTTAATATTA
*
4391973 AAAAATAAAAAT
1 AAAAATATAAAT
*
4391985 AAAAATATAATT
1 AAAAATATAAAT
4391997 AAAAATATAA
1 AAAAATATAA
4392007 GAATATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATATAAAT
Found at i:4392110 original size:19 final size:19
Alignment explanation
Indices: 4392075--4392118 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
4392065 TACAAAAAAA
*
4392075 ATAAAAAATTTAGAAAATT
1 ATAAAAAAATTAGAAAATT
*
4392094 ATAAAAAAATTATAAAATT
1 ATAAAAAAATTAGAAAATT
4392113 -TAAAAA
1 ATAAAAA
4392119 GTATCCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAAAAAAATTAGAAAATT
Found at i:4392255 original size:23 final size:25
Alignment explanation
Indices: 4392207--4392272 Score: 82
Period size: 24 Copynumber: 2.7 Consensus size: 25
4392197 TTTTTCAGTT
*
4392207 CAAAAATTTATAAAAAATAAACAATA
1 CAAAAAATTAT-AAAAATAAACAATA
*
4392233 C-ACAAATTATAAAAATAAA-AATA
1 CAAAAAATTATAAAAATAAACAATA
*
4392256 CAAAAAATCATAAAAAT
1 CAAAAAATTATAAAAAT
4392273 CTTAAAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.14
24 22 0.63
25 7 0.20
26 1 0.03
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (25 bp):
CAAAAAATTATAAAAATAAACAATA
Found at i:4392279 original size:18 final size:18
Alignment explanation
Indices: 4392257--4392298 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4392247 ATAAAAATAC
4392257 AAAAAATCATAAAAATCTT
1 AAAAAAT-ATAAAAATCTT
* *
4392276 AAAAAATTTAAAAATTTT
1 AAAAAATATAAAAATCTT
4392294 AAAAA
1 AAAAA
4392299 GTATCTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAAATATAAAAATCTT
Found at i:4392727 original size:23 final size:25
Alignment explanation
Indices: 4392688--4392742 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
4392678 AAGAATAGAA
*
4392688 AGAG-AAAGAAAGGAAAA-AGAAAAG
1 AGAGAAAAGAAAGCAAAAGA-AAAAG
4392712 AG-GAAAAGAAA-CAAAAGAAAAAG
1 AGAGAAAAGAAAGCAAAAGAAAAAG
4392735 AGAGAAAA
1 AGAGAAAA
4392743 AATAGGGTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.73, C:0.02, G:0.25, T:0.00
Consensus pattern (25 bp):
AGAGAAAAGAAAGCAAAAGAAAAAG
Found at i:4392742 original size:15 final size:15
Alignment explanation
Indices: 4392671--4392742 Score: 58
Period size: 15 Copynumber: 4.9 Consensus size: 15
4392661 AAAAATAAAT
* *
4392671 AAAAAAAAAGAATAG
1 AAAAAGAAAGAAAAG
* *
4392686 AAAGAGAAAGAAAGG
1 AAAAAGAAAGAAAAG
*
4392701 AAAAAG-AA-AAGAG
1 AAAAAGAAAGAAAAG
* *
4392714 GAAAAGAAACAAAAG
1 AAAAAGAAAGAAAAG
*
4392729 AAAAAGAGAGAAAA
1 AAAAAGAAAGAAAA
4392743 AATAGGGTGA
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
13 8 0.19
14 4 0.09
15 31 0.72
ACGTcount: A:0.75, C:0.01, G:0.22, T:0.01
Consensus pattern (15 bp):
AAAAAGAAAGAAAAG
Found at i:4393378 original size:25 final size:25
Alignment explanation
Indices: 4393328--4393378 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
4393318 AAAAAAATTC
* * *
4393328 TATATATTTTTTAATTTTAATTATA
1 TATATATTTATAAATTTTAATGATA
4393353 TATATATTTATAAAGTTTTAA-GATA
1 TATATATTTATAAA-TTTTAATGATA
4393378 T
1 T
4393379 TTTAATGAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATATTTATAAATTTTAATGATA
Found at i:4393732 original size:18 final size:18
Alignment explanation
Indices: 4393699--4393733 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4393689 ATATTGTTAT
*
4393699 ATTTTTATTTACATTTTG
1 ATTTTTATATACATTTTG
*
4393717 ATTTTTATATATATTTT
1 ATTTTTATATACATTTT
4393734 AAATTTGAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (18 bp):
ATTTTTATATACATTTTG
Found at i:4394665 original size:20 final size:20
Alignment explanation
Indices: 4394640--4394694 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
4394630 AACTAGTAAA
4394640 ATAAAAT-TATAATTATAATT
1 ATAAAATATATAATTAT-ATT
*
4394660 ATAAAATATTTAATTATATT
1 ATAAAATATATAATTATATT
* *
4394680 ATATAATATAAAATT
1 ATAAAATATATAATT
4394695 TGTAATTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 22 0.73
21 8 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAAAATATATAATTATATT
Found at i:4394677 original size:27 final size:27
Alignment explanation
Indices: 4394644--4394702 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
4394634 AGTAAAATAA
*
4394644 AATTATAATTATA-ATTATAAAATATT-T
1 AATTAT-ATTATATAATATAAAAT-TTGT
4394671 AATTATATTATATAATATAAAATTTGT
1 AATTATATTATATAATATAAAATTTGT
4394698 AATTA
1 AATTA
4394703 AAAAACTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
AATTATATTATATAATATAAAATTTGT
Found at i:4396032 original size:21 final size:22
Alignment explanation
Indices: 4395986--4396034 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
4395976 CAATTGAAGG
4395986 TATGTACATATAATTTAGTTGA
1 TATGTACATATAATTTAGTTGA
* *
4396008 -ATGTACATATAA-TTATTTTA
1 TATGTACATATAATTTAGTTGA
4396028 TATGTAC
1 TATGTAC
4396035 TTCCCATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (22 bp):
TATGTACATATAATTTAGTTGA
Found at i:4397542 original size:16 final size:17
Alignment explanation
Indices: 4397510--4397546 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
4397500 GCCCGACAAG
*
4397510 AAATTAGGAAATAAAAA
1 AAATTAGAAAATAAAAA
4397527 AAATTAGAAAATAAAAA
1 AAATTAGAAAATAAAAA
4397544 AAA
1 AAA
4397547 AATTACGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (17 bp):
AAATTAGAAAATAAAAA
Found at i:4401324 original size:34 final size:33
Alignment explanation
Indices: 4401268--4401331 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 33
4401258 TAATATTTAA
* * *
4401268 AATATTTTATATTTATATAAATATAAATATGTT
1 AATAATTTATATTTATAAAAATAAAAATATGTT
4401301 AATAATTTATATTATATAAAAATAAAAATAT
1 AATAATTTATATT-TATAAAAATAAAAATAT
4401332 TTATGTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 12 0.44
34 15 0.56
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (33 bp):
AATAATTTATATTTATAAAAATAAAAATATGTT
Found at i:4401789 original size:30 final size:30
Alignment explanation
Indices: 4401754--4401810 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
4401744 TGATTTATAT
4401754 TTATTTAATTT-AATTATTATA-GTTAAAGTA
1 TTATTT-ATTTAAATTA-TATACGTTAAAGTA
4401784 TTATTTATTTAAATTATATACGTTAAA
1 TTATTTATTTAAATTATATACGTTAAA
4401811 TTTTAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (30 bp):
TTATTTATTTAAATTATATACGTTAAAGTA
Found at i:4401826 original size:30 final size:29
Alignment explanation
Indices: 4401758--4401831 Score: 69
Period size: 30 Copynumber: 2.4 Consensus size: 29
4401748 TTATATTTAT
* *
4401758 TTAATTTAATTATTATAGTTAAAGTATTAT
1 TTAATTAAATTA-TATAGTTAAAGTATTAA
* *
4401788 TTATTTAAATTATATACGTTAAA-TTTTAAA
1 TTAATTAAATTATATA-GTTAAAGTATT-AA
4401818 TTAATTAAAATTAT
1 TTAATT-AAATTAT
4401832 CTAACTAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 7 0.19
30 22 0.61
31 7 0.19
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (29 bp):
TTAATTAAATTATATAGTTAAAGTATTAA
Found at i:4402944 original size:17 final size:16
Alignment explanation
Indices: 4402916--4402961 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
4402906 TATAAATGAG
*
4402916 ATAATAATTTAAAAAT
1 ATAAAAATTTAAAAAT
4402932 ATAAAAATATTAAAAAT
1 ATAAAAAT-TTAAAAAT
*
4402949 ATTAAAATTTAAA
1 ATAAAAATTTAAA
4402962 TTATAAATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 12 0.44
17 15 0.56
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAAAAATTTAAAAAT
Found at i:4405142 original size:77 final size:77
Alignment explanation
Indices: 4405015--4405170 Score: 240
Period size: 77 Copynumber: 2.0 Consensus size: 77
4405005 GCATGGCATC
* * * **
4405015 TTGATATGCTTTTGGGTACATGTGGAAAGCCAAAAAATGCTTTCATTTTATGCTTTAAAAGATGG
1 TTGATATGCTTTTGCGTACATGTGAAAAGCCAAAAAATGCTTTCATTTTATGCTTGAAAAGATAA
4405080 CTATTCACTTGT
66 CTATTCACTTGT
* * *
4405092 TTGATTTGCTTTTGCGTACATGTGAAAAGCCCAAAAATGCTTTCATTTTATGCTTGAAAGGATAA
1 TTGATATGCTTTTGCGTACATGTGAAAAGCCAAAAAATGCTTTCATTTTATGCTTGAAAAGATAA
4405157 CTATTCACTTGT
66 CTATTCACTTGT
4405169 TT
1 TT
4405171 TGTAGAAGAA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
77 71 1.00
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (77 bp):
TTGATATGCTTTTGCGTACATGTGAAAAGCCAAAAAATGCTTTCATTTTATGCTTGAAAAGATAA
CTATTCACTTGT
Found at i:4407775 original size:20 final size:20
Alignment explanation
Indices: 4407750--4407849 Score: 58
Period size: 20 Copynumber: 5.3 Consensus size: 20
4407740 TTAAATCATA
4407750 AAATAAATTTAAATTTTTAT
1 AAATAAATTTAAATTTTTAT
**
4407770 AAATAAAAATAAATTATATCT-T
1 AAATAAATTTAAATT-T-T-TAT
*
4407792 AAA-AATTTTAAA--TTTAT
1 AAATAAATTTAAATTTTTAT
* *
4407809 --AT-AA-TT--ATATTTAA
1 AAATAAATTTAAATTTTTAT
4407823 AAATAAATTTAAATTTTTAT
1 AAATAAATTTAAATTTTTAT
4407843 AAATAAA
1 AAATAAA
4407850 AATAAAAATA
Statistics
Matches: 58, Mismatches: 9, Indels: 26
0.62 0.10 0.28
Matches are distributed among these distances:
12 1 0.02
14 6 0.10
15 2 0.03
16 3 0.05
17 4 0.07
18 3 0.05
20 26 0.45
21 7 0.12
22 5 0.09
23 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (20 bp):
AAATAAATTTAAATTTTTAT
Found at i:4407781 original size:73 final size:73
Alignment explanation
Indices: 4407697--4407856 Score: 250
Period size: 73 Copynumber: 2.2 Consensus size: 73
4407687 TTAATCTTAC
* *
4407697 AAATAAAAATAAAATATATTTTAAAAAATTTAAATTTGTATAATTAAATCAT-AAAATAAATTTA
1 AAATAAAAATAAAATATATCTTAAAAAATTTAAATTTATATAATTAAAT-ATAAAAATAAATTTA
4407761 AATTTTTAT
65 AATTTTTAT
* * * *
4407770 AAATAAAAATAAATTATATCTTAAAAATTTTAAATTTATATAATTATATTTAAAAATAAATTTAA
1 AAATAAAAATAAAATATATCTTAAAAAATTTAAATTTATATAATTAAATATAAAAATAAATTTAA
4407835 ATTTTTAT
66 ATTTTTAT
4407843 AAATAAAAATAAAA
1 AAATAAAAATAAAA
4407857 ATAAAAATAA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
72 1 0.01
73 78 0.99
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (73 bp):
AAATAAAAATAAAATATATCTTAAAAAATTTAAATTTATATAATTAAATATAAAAATAAATTTAA
ATTTTTAT
Found at i:4407794 original size:32 final size:32
Alignment explanation
Indices: 4407722--4407782 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
4407712 ATATTTTAAA
* *
4407722 AAATTTAAATTTGTATAATTAAATCATAAAAT
1 AAATTTAAATTTGTATAAATAAATAATAAAAT
*
4407754 AAATTTAAATTTTTATAAATAAA-AATAAA
1 AAATTTAAATTTGTATAAATAAATAATAAA
4407783 TTATATCTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 5 0.19
32 21 0.81
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (32 bp):
AAATTTAAATTTGTATAAATAAATAATAAAAT
Found at i:4407837 original size:32 final size:30
Alignment explanation
Indices: 4407781--4407844 Score: 85
Period size: 32 Copynumber: 2.1 Consensus size: 30
4407771 AATAAAAATA
4407781 AATTATATCTTAAAAATTTTAAATTTATAT
1 AATTATATCTTAAAAATTTTAAATTTATAT
*
4407811 AATTATAT-TTAAAAATAAATTTAAATTTTTAT
1 AATTATATCTTAAAAAT---TTTAAATTTATAT
4407843 AA
1 AA
4407845 ATAAAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 8 0.27
30 8 0.27
32 14 0.47
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (30 bp):
AATTATATCTTAAAAATTTTAAATTTATAT
Found at i:4407852 original size:6 final size:6
Alignment explanation
Indices: 4407843--4407872 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
4407833 AAATTTTTAT
4407843 AAATAA AAATAA AAATAA AAATAA ATAATA
1 AAATAA AAATAA AAATAA AAATAA A-AATA
4407873 CTTTAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:4410106 original size:48 final size:49
Alignment explanation
Indices: 4410047--4410141 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 49
4410037 ATATATTTAT
4410047 ATCACATAAATATTAATATTTAATATTTATTTTAAATCT-AACAGTACG
1 ATCACATAAATATTAATATTTAATATTTATTTTAAATCTGAACAGTACG
*
4410095 ATCACATAAATATTAGTATTTAATATTTATTTTAAATCTGAACAGTA
1 ATCACATAAATATTAATATTTAATATTTATTTTAAATCTGAACAGTA
4410142 ACGACGTACA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 38 0.84
49 7 0.16
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.42
Consensus pattern (49 bp):
ATCACATAAATATTAATATTTAATATTTATTTTAAATCTGAACAGTACG
Found at i:4411904 original size:18 final size:17
Alignment explanation
Indices: 4411869--4411908 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
4411859 AAAAAATTCG
*
4411869 ATAATTTTAAATATAAT
1 ATAATTTTAAATAAAAT
*
4411886 ATAATTATTTAATAAAAT
1 ATAATT-TTAAATAAAAT
4411904 ATAAT
1 ATAAT
4411909 ATAAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATAATTTTAAATAAAAT
Found at i:4411914 original size:12 final size:12
Alignment explanation
Indices: 4411897--4411963 Score: 56
Period size: 12 Copynumber: 5.9 Consensus size: 12
4411887 TAATTATTTA
4411897 ATAAAATATAAT
1 ATAAAATATAAT
4411909 AT-AAA-A-AAT
1 ATAAAATATAAT
*
4411918 -T-TAATGATAAT
1 ATAAAAT-ATAAT
4411929 A-AAAATATAAT
1 ATAAAATATAAT
*
4411940 AAAAAATATAAT
1 ATAAAATATAAT
4411952 ATAAATATATAA
1 ATAAA-ATATAA
4411964 AAAATTTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
8 3 0.07
9 3 0.07
10 2 0.04
11 12 0.27
12 19 0.42
13 6 0.13
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.31
Consensus pattern (12 bp):
ATAAAATATAAT
Found at i:4411922 original size:14 final size:15
Alignment explanation
Indices: 4411899--4411956 Score: 61
Period size: 14 Copynumber: 4.1 Consensus size: 15
4411889 ATTATTTAAT
4411899 AAAATATAAT-ATAA
1 AAAATATAATAATAA
* *
4411913 AAAATTTAATGATAA
1 AAAATATAATAATAA
4411928 TAAAA-AT-ATAATAA
1 -AAAATATAATAATAA
4411942 AAAATATAAT-ATAA
1 AAAATATAATAATAA
4411956 A
1 A
4411957 TATATAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
13 4 0.11
14 22 0.59
15 7 0.19
16 4 0.11
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (15 bp):
AAAATATAATAATAA
Found at i:4411940 original size:11 final size:11
Alignment explanation
Indices: 4411924--4411966 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
4411914 AAATTTAATG
4411924 ATAATAAAAAT
1 ATAATAAAAAT
4411935 ATAATAAAAAAT
1 ATAAT-AAAAAT
*
4411947 ATAATATAAAT
1 ATAATAAAAAT
4411958 AT-ATAAAAA
1 ATAATAAAAA
4411967 ATTTTAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 6 0.21
11 12 0.41
12 11 0.38
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAATAAAAAT
Found at i:4411958 original size:29 final size:31
Alignment explanation
Indices: 4411895--4411955 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
4411885 TATAATTATT
*
4411895 TAAT-AAAATATAATATAAAAAATTTAATGA
1 TAATAAAAATATAATATAAAAAATATAATGA
4411925 TAATAAAAATAT-A-ATAAAAAATATAAT-A
1 TAATAAAAATATAATATAAAAAATATAATGA
4411953 TAA
1 TAA
4411956 ATATATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 4 0.14
29 13 0.45
30 5 0.17
31 7 0.24
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (31 bp):
TAATAAAAATATAATATAAAAAATATAATGA
Found at i:4411980 original size:20 final size:22
Alignment explanation
Indices: 4411877--4411968 Score: 82
Period size: 23 Copynumber: 4.2 Consensus size: 22
4411867 CGATAATTTT
* *
4411877 AAATATAATATAATTATTTAATA
1 AAATATAATATAAATATATAA-A
**
4411900 AAATATAATATAAA-A-A-ATT
1 AAATATAATATAAATATATAAA
* *
4411919 TAATGATAATAAAAATATAATAAA
1 AAAT-ATAATATAAATAT-ATAAA
4411943 AAATATAATATAAATATATAAA
1 AAATATAATATAAATATATAAA
4411965 AAAT
1 AAAT
4411969 TTTAATAATA
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
19 3 0.06
20 10 0.19
21 1 0.02
22 10 0.19
23 26 0.48
24 4 0.07
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (22 bp):
AAATATAATATAAATATATAAA
Found at i:4411983 original size:26 final size:26
Alignment explanation
Indices: 4411893--4411983 Score: 84
Period size: 23 Copynumber: 3.6 Consensus size: 26
4411883 AATATAATTA
* *
4411893 TTTAATAAAATATA-ATATAAAAAAT
1 TTTAATAATATAAATATATAAAAAAT
* *
4411918 TTAATGATAATAAAAATATAATAAAAAA-
1 TT--TAATAATATAAATAT-ATAAAAAAT
4411946 --T-ATAATATAAATATATAAAAAAT
1 TTTAATAATATAAATATATAAAAAAT
4411969 TTTAATAATATAAAT
1 TTTAATAATATAAAT
4411984 TATTAATTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
22 8 0.15
23 12 0.23
24 1 0.02
25 3 0.06
26 11 0.21
27 8 0.15
28 2 0.04
29 8 0.15
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (26 bp):
TTTAATAATATAAATATATAAAAAAT
Found at i:4412029 original size:20 final size:20
Alignment explanation
Indices: 4411975--4412033 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
4411965 AAATTTTAAT
*
4411975 AATATAAATTATTAATTTTTTA
1 AATAT-AATTA-TAATATTTTA
*
4411997 AA-ATTTATATATAATATTTTA
1 AATA-TAAT-TATAATATTTTA
4412018 AATATAATTATAATAT
1 AATATAATTATAATAT
4412034 AATAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 8 0.26
21 17 0.55
22 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATATAATTATAATATTTTA
Found at i:4412966 original size:43 final size:43
Alignment explanation
Indices: 4412905--4412990 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
4412895 GGAGCCGTTG
4412905 GGGTCTCGGTCTTGCTCTATGTCTTTTGTCAGCTTCCTCCTAA
1 GGGTCTCGGTCTTGCTCTATGTCTTTTGTCAGCTTCCTCCTAA
* *
4412948 GGGTCTTGGTCTTGCTCTATGTCTTTTGTCATCTTCCTCCTAA
1 GGGTCTCGGTCTTGCTCTATGTCTTTTGTCAGCTTCCTCCTAA
4412991 TAGAGTCCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.09, C:0.27, G:0.20, T:0.44
Consensus pattern (43 bp):
GGGTCTCGGTCTTGCTCTATGTCTTTTGTCAGCTTCCTCCTAA
Found at i:4413174 original size:5 final size:5
Alignment explanation
Indices: 4413166--4413190 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4413156 TAAATCTTAA
4413166 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
4413191 TTAAACTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:4413705 original size:11 final size:11
Alignment explanation
Indices: 4413676--4413742 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
4413666 TGATAATTTT
4413676 AAATATAATATA
1 AAATATAATA-A
*
4413688 AATTATAATAA
1 AAATATAATAA
4413699 AAATATAAT--
1 AAATATAATAA
* *
4413708 ATATTTAAT--
1 AAATATAATAA
4413717 AAATATAA-AA
1 AAATATAATAA
4413727 ATAATATAATAA
1 A-AATATAATAA
4413739 AAAT
1 AAAT
4413743 GATATGATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
9 13 0.29
10 1 0.02
11 19 0.42
12 12 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AAATATAATAA
Found at i:4414654 original size:16 final size:16
Alignment explanation
Indices: 4414633--4414702 Score: 79
Period size: 16 Copynumber: 4.4 Consensus size: 16
4414623 GTTGTCATTC
*
4414633 AATTTATATCATTTTA
1 AATTTATATTATTTTA
*
4414649 AATTTAGATTTATTTTA
1 AATTTATA-TTATTTTA
*
4414666 AATTTAT-TTATCTTA
1 AATTTATATTATTTTA
* *
4414681 AATTTAAATTTTTTTA
1 AATTTATATTATTTTA
4414697 AATTTA
1 AATTTA
4414703 AAACTTTTGA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
15 13 0.29
16 19 0.42
17 13 0.29
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (16 bp):
AATTTATATTATTTTA
Found at i:4414703 original size:16 final size:17
Alignment explanation
Indices: 4414643--4414704 Score: 85
Period size: 17 Copynumber: 3.8 Consensus size: 17
4414633 AATTTATATC
*
4414643 ATTTTAAATTTAGATTT
1 ATTTTAAATTTAAATTT
4414660 ATTTTAAATTT--ATTT
1 ATTTTAAATTTAAATTT
*
4414675 ATCTTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
4414692 -TTTTAAATTTAAA
1 ATTTTAAATTTAAA
4414705 ACTTTTGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
15 14 0.34
16 12 0.29
17 15 0.37
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:4415299 original size:25 final size:27
Alignment explanation
Indices: 4415261--4415314 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
4415251 CTTTAATATT
* **
4415261 AATATATTATATTATTTTTA-TTTAAA
1 AATAAATTATATTATCATTATTTTAAA
4415287 AATAAATTA-ATTATCATTATTTTAAA
1 AATAAATTATATTATCATTATTTTAAA
4415313 AA
1 AA
4415315 GTTTAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
AATAAATTATATTATCATTATTTTAAA
Found at i:4415560 original size:28 final size:30
Alignment explanation
Indices: 4415519--4415574 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 30
4415509 TAAATAATAA
*
4415519 TAATTAATTAATTT-AAATATAA-ATATTT
1 TAATAAATTAATTTCAAATATAATATATTT
* *
4415547 TAATAAATTCATTTCAAATTTAATATAT
1 TAATAAATTAATTTCAAATATAATATAT
4415575 AATTGAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 12 0.52
29 7 0.30
30 4 0.17
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (30 bp):
TAATAAATTAATTTCAAATATAATATATTT
Found at i:4415655 original size:26 final size:27
Alignment explanation
Indices: 4415612--4415677 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
4415602 TTTAACATGC
*
4415612 ATTTAAATTAAAATATAACTT-AATATA
1 ATTTAAATTAAAATATAA-TTAAAGATA
* *
4415639 ATTTAATTTAACA-ATAATTAAAGATA
1 ATTTAAATTAAAATATAATTAAAGATA
4415665 ATTTTAAAATTAA
1 A-TTT-AAATTAA
4415678 CTAAATTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
25 2 0.06
26 10 0.31
27 14 0.44
28 6 0.19
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (27 bp):
ATTTAAATTAAAATATAATTAAAGATA
Found at i:4416744 original size:20 final size:20
Alignment explanation
Indices: 4416716--4416753 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4416706 TTTACAATTT
*
4416716 TTATTGTGTAAAAAATAATA
1 TTATAGTGTAAAAAATAATA
*
4416736 TTATAGTGTAAATAATAA
1 TTATAGTGTAAAAAATAA
4416754 AGAATAAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (20 bp):
TTATAGTGTAAAAAATAATA
Found at i:4422375 original size:20 final size:19
Alignment explanation
Indices: 4422315--4422378 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 19
4422305 TTGAATACCA
*
4422315 TAAAAA-TAAAAATTTATT
1 TAAAAATTAAAAATTAATT
*
4422333 TGATAAAATAAAAAATATAAATT
1 T-A-AAAATTAAAAAT-T-AATT
4422356 TAAAAATTTAAAAATTAATT
1 TAAAAA-TTAAAAATTAATT
4422376 TAA
1 TAA
4422379 TTAATACAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 11 0.30
21 11 0.30
22 9 0.24
23 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
TAAAAATTAAAAATTAATT
Found at i:4422425 original size:17 final size:18
Alignment explanation
Indices: 4422315--4422426 Score: 50
Period size: 21 Copynumber: 5.8 Consensus size: 18
4422305 TTGAATACCA
* *
4422315 TAAAAATAAAAATTTATT
1 TAAAAATTAAAATATATT
*
4422333 TGATAAAATAAAAAATATAAATT
1 T-A-AAAAT-TAAAATAT--ATT
4422356 TAAAAATTTAAAA-ATTAATT
1 TAAAAA-TTAAAATA-T-ATT
* *
4422376 TAATTAA-TACAAATATTTT
1 TAA-AAATTA-AAATATATT
**
4422395 TAAAAATTTTAATATATT
1 TAAAAATTAAAATATATT
4422413 T-AAAATTAAAATAT
1 TAAAAATTAAAATAT
4422427 CAACGTTTCT
Statistics
Matches: 73, Mismatches: 10, Indels: 23
0.69 0.09 0.22
Matches are distributed among these distances:
17 11 0.15
18 11 0.15
19 9 0.12
20 17 0.23
21 19 0.26
22 2 0.03
23 4 0.05
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (18 bp):
TAAAAATTAAAATATATT
Found at i:4422888 original size:30 final size:32
Alignment explanation
Indices: 4422853--4422913 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 32
4422843 TATTTTTTAA
* *
4422853 TTTTTACATTAT-AATATTAC-TTATAAATAT
1 TTTTTACATAATAAAAATTACTTTATAAATAT
*
4422883 TTTTTATATAATAAAAATTACTTTATAAATA
1 TTTTTACATAATAAAAATTACTTTATAAATA
4422914 AAAATATCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 10 0.38
31 7 0.27
32 9 0.35
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (32 bp):
TTTTTACATAATAAAAATTACTTTATAAATAT
Found at i:4424027 original size:23 final size:24
Alignment explanation
Indices: 4423985--4424036 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
4423975 TCTTTTTTTT
4423985 TAAAATTTATAAGAGAAAAA-AAA
1 TAAAATTTATAAGAGAAAAATAAA
4424008 TAAAA-TTATTAA-AGATAAAATAAA
1 TAAAATTTA-TAAGAGA-AAAATAAA
*
4424032 AAAAA
1 TAAAA
4424037 CATGTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.24
23 12 0.48
24 7 0.28
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (24 bp):
TAAAATTTATAAGAGAAAAATAAA
Found at i:4425882 original size:17 final size:17
Alignment explanation
Indices: 4425860--4425893 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4425850 TTTAAGATAA
*
4425860 ATTTTAGATAAGTATAT
1 ATTTTAGATAAATATAT
*
4425877 ATTTTATATAAATATAT
1 ATTTTAGATAAATATAT
4425894 TTAATTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
ATTTTAGATAAATATAT
Found at i:4425914 original size:26 final size:29
Alignment explanation
Indices: 4425874--4425947 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 29
4425864 TAGATAAGTA
*
4425874 TATATTTTATATAAATATATTTA-ATTTT
1 TATATTTTATTTAAATATATTTATATTTT
*
4425902 T-TA-TTTATTTAAA-A-AATTATATTTT
1 TATATTTTATTTAAATATATTTATATTTT
4425927 TATATTTATATTTAAATATAT
1 TATATTT-TATTTAAATATAT
4425948 ATTGAATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
24 4 0.11
25 7 0.19
26 11 0.30
27 4 0.11
28 9 0.24
29 1 0.03
30 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
TATATTTTATTTAAATATATTTATATTTT
Found at i:4425948 original size:26 final size:26
Alignment explanation
Indices: 4425874--4425950 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 26
4425864 TAGATAAGTA
*
4425874 TATATTT-TATATAAATATATTTAATTTT
1 TATATTTATATTTAAATATA--T-ATTTT
* *
4425902 T-TATTTAT-TTAAAAAATTATATTTT
1 TATATTTATATTTAAATA-TATATTTT
4425927 TATATTTATATTTAAATATATATT
1 TATATTTATATTTAAATATATATT
4425951 GAATAAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
25 6 0.15
26 14 0.35
27 16 0.40
28 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TATATTTATATTTAAATATATATTTT
Found at i:4428826 original size:41 final size:41
Alignment explanation
Indices: 4428762--4428846 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 41
4428752 AATTAAATAA
* * * *
4428762 AAATGTTGCTAAATTAAATTATATAACGGTGTTTTATCTGT
1 AAATATTGCTAAATTAAACTATATAACGGTATTTTATCTAT
*
4428803 AAATATTGCTAAATTAAACTATATAATGGTATTTTATCTAT
1 AAATATTGCTAAATTAAACTATATAACGGTATTTTATCTAT
4428844 AAA
1 AAA
4428847 CACCATTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (41 bp):
AAATATTGCTAAATTAAACTATATAACGGTATTTTATCTAT
Found at i:4428857 original size:41 final size:41
Alignment explanation
Indices: 4428770--4428868 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 41
4428760 AAAAATGTTG
* * * ***
4428770 CTAAATTAAATTATATAACGGTGTTTTATCTGTAAATATTG
1 CTAAATTAAATTATATAACGGTATTTTATCTATAAACACCA
* *
4428811 CTAAATTAAACTATATAATGGTATTTTATCTATAAACACCA
1 CTAAATTAAATTATATAACGGTATTTTATCTATAAACACCA
*
4428852 TTAAATTAAATTATATA
1 CTAAATTAAATTATATA
4428869 GTGACGTTTG
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.41
Consensus pattern (41 bp):
CTAAATTAAATTATATAACGGTATTTTATCTATAAACACCA
Found at i:4429030 original size:27 final size:27
Alignment explanation
Indices: 4428946--4429030 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
4428936 TACTCTTTGC
* * * *
4428946 CATAAGTACTTTGTCACAAATACCTGG
1 CATAAGCACTTTGGCATAAGTACCTGG
* * * *
4428973 CACAAACACTTTGGCATAAGTACCCGA
1 CATAAGCACTTTGGCATAAGTACCTGG
*
4429000 CATAAGCACTTTGGCATAAGTACTTGG
1 CATAAGCACTTTGGCATAAGTACCTGG
4429027 CATA
1 CATA
4429031 GGTATTTTGG
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (27 bp):
CATAAGCACTTTGGCATAAGTACCTGG
Found at i:4429039 original size:27 final size:27
Alignment explanation
Indices: 4429007--4429259 Score: 203
Period size: 27 Copynumber: 9.4 Consensus size: 27
4428997 CGACATAAGC
* *
4429007 ACTTTGGCATAAGTACTTGGCATAGGT
1 ACTTTGGCACAAGTACTTGGCACAGGT
* * * *
4429034 ATTTTGGCAC-AGATATTTTGACATAGGT
1 ACTTTGGCACAAG-TA-CTTGGCACAGGT
* * * *
4429062 AC-CTGGTACAAGCACTTTGACACAGGT
1 ACTTTGGCACAAGTAC-TTGGCACAGGT
4429089 A-TTTGGCACAAGTACTTTGGCACAGGT
1 ACTTTGGCACAAGTAC-TTGGCACAGGT
*
4429116 ACTTTGGCACAAATACTTGGCACAGGT
1 ACTTTGGCACAAGTACTTGGCACAGGT
*
4429143 ACTTTGGCACAAATACTTGGCACAGGT
1 ACTTTGGCACAAGTACTTGGCACAGGT
* * * *
4429170 A-ATTGGCA-AGGTACTTGGCATATGT
1 ACTTTGGCACAAGTACTTGGCACAGGT
* * * *
4429195 A-TTTCGGCACAGGTAATTGACACAAGT
1 ACTTT-GGCACAAGTACTTGGCACAGGT
* * * *
4429222 ATTTTGGCACAGGTACTTGGTATAGGT
1 ACTTTGGCACAAGTACTTGGCACAGGT
4429249 ACTTTGGCACA
1 ACTTTGGCACA
4429260 TGCATTTTTG
Statistics
Matches: 186, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
25 16 0.09
26 12 0.06
27 129 0.69
28 29 0.16
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (27 bp):
ACTTTGGCACAAGTACTTGGCACAGGT
Found at i:4429040 original size:14 final size:14
Alignment explanation
Indices: 4429009--4429062 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
4428999 ACATAAGCAC
*
4429009 TTTGGCATAAGTA-
1 TTTGGCATAGGTAT
*
4429022 CTTGGCATAGGTAT
1 TTTGGCATAGGTAT
* *
4429036 TTTGGCACAGATAT
1 TTTGGCATAGGTAT
*
4429050 TTTGACATAGGTA
1 TTTGGCATAGGTA
4429063 CCTGGTACAA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
13 11 0.34
14 21 0.66
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (14 bp):
TTTGGCATAGGTAT
Found at i:4429120 original size:41 final size:40
Alignment explanation
Indices: 4429009--4429259 Score: 179
Period size: 41 Copynumber: 6.2 Consensus size: 40
4428999 ACATAAGCAC
* * * *
4429009 TTTGGCATAAGTACTTGGCATAGGTATTTTGGCACAGATA
1 TTTGGCACAAGTACTTGGCACAGGTACTTTGGCACAGGTA
* * * * * *
4429049 TTTTG-ACATAGGTACCTGGTACAAGCACTTTGACACAGGTA
1 TTTGGCACA-A-GTACTTGGCACAGGTACTTTGGCACAGGTA
**
4429090 TTTGGCACAAGTACTTTGGCACAGGTACTTTGGCACAAATA
1 TTTGGCACAAGTAC-TTGGCACAGGTACTTTGGCACAGGTA
* * **
4429131 CTTGGCACAGGTACTTTGGCACAAATAC-TTGGCACAGGTA
1 TTTGGCACAAGTAC-TTGGCACAGGTACTTTGGCACAGGTA
* * * *
4429171 ATTGGCA-AGGTACTTGGCATATGTA-TTTCGGCACAGGTA
1 TTTGGCACAAGTACTTGGCACAGGTACTTT-GGCACAGGTA
* * * * *
4429210 ATTGACACAAGTATTTTGGCACAGGTAC-TTGGTATAGGTA
1 TTTGGCACAAGTA-CTTGGCACAGGTACTTTGGCACAGGTA
4429250 CTTTGGCACA
1 -TTTGGCACA
4429260 TGCATTTTTG
Statistics
Matches: 164, Mismatches: 37, Indels: 19
0.75 0.17 0.09
Matches are distributed among these distances:
38 11 0.07
39 24 0.15
40 37 0.23
41 89 0.54
42 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (40 bp):
TTTGGCACAAGTACTTGGCACAGGTACTTTGGCACAGGTA
Found at i:4429300 original size:48 final size:48
Alignment explanation
Indices: 4429224--4429352 Score: 197
Period size: 48 Copynumber: 2.7 Consensus size: 48
4429214 ACACAAGTAT
* *
4429224 TTTGGCACAGGTACTTGGTATAGGTACTTTGGCACATGCATTTTTGGC
1 TTTGGCACAGGTACTTGGCATAGGTACTTTGGCACAAGCATTTTTGGC
* * *
4429272 TTTGACACAGGTACTTGACATAAGTACTTTGGCACAAGCATTTTTGGC
1 TTTGGCACAGGTACTTGGCATAGGTACTTTGGCACAAGCATTTTTGGC
*
4429320 TTTGGCACAAGTACTTGGCA-AGGTACTTTGGCA
1 TTTGGCACAGGTACTTGGCATAGGTACTTTGGCA
4429353 TAGGTTAGCA
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 12 0.17
48 60 0.83
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (48 bp):
TTTGGCACAGGTACTTGGCATAGGTACTTTGGCACAAGCATTTTTGGC
Found at i:4429426 original size:14 final size:14
Alignment explanation
Indices: 4429319--4429426 Score: 72
Period size: 13 Copynumber: 8.4 Consensus size: 14
4429309 GCATTTTTGG
*
4429319 CTTTGGCACAAGTA
1 CTTTGGCACAGGTA
4429333 C-TTGGCA-AGGTA
1 CTTTGGCACAGGTA
*
4429345 CTTTGGCATAGG--
1 CTTTGGCACAGGTA
*
4429357 --TTAGCACAGGTA
1 CTTTGGCACAGGTA
*
4429369 C-TTGGCACAAGTA
1 CTTTGGCACAGGTA
* * *
4429382 ATTTGACACAAGTA
1 CTTTGGCACAGGTA
*
4429396 C-TTGGTA-AGGTA
1 CTTTGGCACAGGTA
*
4429408 TTTTGGCACAGGTA
1 CTTTGGCACAGGTA
4429422 CTTTG
1 CTTTG
4429427 ACAATAATAC
Statistics
Matches: 72, Mismatches: 14, Indels: 16
0.71 0.14 0.16
Matches are distributed among these distances:
10 8 0.11
12 9 0.12
13 31 0.43
14 24 0.33
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (14 bp):
CTTTGGCACAGGTA
Found at i:4431913 original size:67 final size:67
Alignment explanation
Indices: 4431838--4432254 Score: 469
Period size: 67 Copynumber: 6.2 Consensus size: 67
4431828 TCACATTGTG
* * ** * *
4431838 GAGAAGTCGACCATTGTGATCCTATGCGTCACTTCCGTCACTTTCCCCAATGTAAGTACTCTTAA
1 GAGAAGTCGATCATTGTGGTCCTATGCACCACTTCCGTCACTTTTCCCAATGCAAGTACTCTTAA
4431903 TA
66 TA
** * *
4431905 GAGAAGTCGATTGTTGTGGTCATATGCACCACTTCCGTCACTTTTCTCAATGCAAGTACTCTTAA
1 GAGAAGTCGATCATTGTGGTCCTATGCACCACTTCCGTCACTTTTCCCAATGCAAGTACTCTTAA
4431970 TA
66 TA
* ** **
4431972 GAAAAGTCGATCATTGTGGT-CTCATGCACCACTTCCGTCACTTTTCTTAATGTTAGTACTCTTA
1 GAGAAGTCGATCATTGTGGTCCT-ATGCACCACTTCCGTCACTTTTCCCAATGCAAGTACTCTTA
4432036 ATA
65 ATA
* ** * *
4432039 AAGAAGTCGATCATTGTGGTTATATGCGCCACTTCTGTCACTTTTCCCAATGCAAGTACTCTTAA
1 GAGAAGTCGATCATTGTGGTCCTATGCACCACTTCCGTCACTTTTCCCAATGCAAGTACTCTTAA
*
4432104 TT
66 TA
* ** * * * * *
4432106 GAGAAATCGATTGTTGTGG-CCATATGCACCATTTTCATCATTTTTCCTAATGCAAGTACTCTTA
1 GAGAAGTCGATCATTGTGGTCC-TATGCACCACTTCCGTCACTTTTCCCAATGCAAGTACTCTTA
4432170 ATA
65 ATA
** * ** * *
4432173 GAGAAGTTAATCATTGTGGTCTTATGTGCCATTTCCGTTACTTTTCCCAATGCAAGTACTCTTAA
1 GAGAAGTCGATCATTGTGGTCCTATGCACCACTTCCGTCACTTTTCCCAATGCAAGTACTCTTAA
4432238 TA
66 TA
*
4432240 GAGAAGTGGATCATT
1 GAGAAGTCGATCATT
4432255 AAGGTCATAT
Statistics
Matches: 290, Mismatches: 56, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
66 1 0.00
67 287 0.99
68 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (67 bp):
GAGAAGTCGATCATTGTGGTCCTATGCACCACTTCCGTCACTTTTCCCAATGCAAGTACTCTTAA
TA
Found at i:4432090 original size:201 final size:201
Alignment explanation
Indices: 4431839--4432326 Score: 579
Period size: 201 Copynumber: 2.4 Consensus size: 201
4431829 CACATTGTGG
* * * * *
4431839 AGAAGTCGACCATTGTGATCCTATGCGTCACTTCCGTCACTTTCCCCAATGTAAGTACTCTTAAT
1 AGAAGTCGATCATTGTGGTCATATGCGTCACTTCTGTCACTTTTCCCAATGTAAGTACTCTTAAT
*
4431904 AGAGAAGTCGATTGTTGTGGTCATATGCACCACTTCCGTCACTTTT-CTCAATGCAAGTACTCTT
66 AGAGAAGTCGATTGTTGTGGTCATATGCACCACTTCCATCACTTTTCCT-AATGCAAGTACTCTT
* ** **
4431968 AATAGAAAAGTCGATCATTGTGGTCTCATGCACCACTTCCGTCACTTTTCTTAATGTTAGTACTC
130 AATAGAAAAGTCAATCATTGTGGTCTCATGCACCACTTCCGTCACTTTTCCCAATGCAAGTACTC
4432033 TTAATAA
195 TTAATAA
* * *
4432040 AGAAGTCGATCATTGTGGTTATATGCGCCACTTCTGTCACTTTTCCCAATGCAAGTACTCTTAAT
1 AGAAGTCGATCATTGTGGTCATATGCGTCACTTCTGTCACTTTTCCCAATGTAAGTACTCTTAAT
* * * * * *
4432105 TGAGAAATCGATTGTTGTGGCCATATGCACCATTTTCATCATTTTTCCTAATGCAAGTACTCTTA
66 AGAGAAGTCGATTGTTGTGGTCATATGCACCACTTCCATCACTTTTCCTAATGCAAGTACTCTTA
* * * ** * *
4432170 ATAGAGAAGTTAATCATTGTGGTCTTATGTGCCATTTCCGTTACTTTTCCCAATGCAAGTACTCT
131 ATAGAAAAGTCAATCATTGTGGTCTCATGCACCACTTCCGTCACTTTTCCCAATGCAAGTACTCT
*
4432235 TAATAG
196 TAATAA
* ** * * *
4432241 AGAAGTGGATCATTAAGGTCATATGCGTCAC-TCTTATCAC-TTTCTC-ATTTACAAGTACTCTT
1 AGAAGTCGATCATTGTGGTCATATGCGTCACTTC-TGTCACTTTTCCCAATGT--AAGTACTCTT
* * *
4432303 AATGGAGAGGTCGTTTGTTGTGGT
63 AATAGAGAAGTCGATTGTTGTGGT
4432327 TTCATGCACC
Statistics
Matches: 241, Mismatches: 42, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
199 2 0.01
200 7 0.03
201 230 0.95
202 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (201 bp):
AGAAGTCGATCATTGTGGTCATATGCGTCACTTCTGTCACTTTTCCCAATGTAAGTACTCTTAAT
AGAGAAGTCGATTGTTGTGGTCATATGCACCACTTCCATCACTTTTCCTAATGCAAGTACTCTTA
ATAGAAAAGTCAATCATTGTGGTCTCATGCACCACTTCCGTCACTTTTCCCAATGCAAGTACTCT
TAATAA
Found at i:4432326 original size:134 final size:133
Alignment explanation
Indices: 4431891--4432315 Score: 430
Period size: 134 Copynumber: 3.2 Consensus size: 133
4431881 TCCCCAATGT
** * * *
4431891 AAGTACTCTTAATAGAGAAGTCGATTGTTGTGGTCATATGCACCACTTCCGTCACTTTTCTCAAT
1 AAGTACTCTTAATAGAGAAGTCGATCATTGTGGTCTTATGCGCCACTTCCGTCACTTTTCCCAAT
* ** *
4431956 GCAAGTACTCTTAATAGAAAAGTCGATCATTGTGGTC-TCATGCACCACTTCCGTCACTTT-TCT
66 GCAAGTACTCTTAATAGAGAAGTCGATCATTGTGGTCAT-ATGCACCACTT-TATCACTTTCTCA
4432019 TAATGT-
129 T-AT-TC
* * *
4432025 TAGTACTCTTAATAAAGAAGTCGATCATTGTGGT-TATATGCGCCACTTCTGTCACTTTTCCCAA
1 AAGTACTCTTAATAGAGAAGTCGATCATTGTGGTCT-TATGCGCCACTTCCGTCACTTTTCCCAA
* * ** * * * *
4432089 TGCAAGTACTCTTAATTGAGAAATCGATTGTTGTGGCCATATGCACCATTTTCATCA-TTTTTCC
65 TGCAAGTACTCTTAATAGAGAAGTCGATCATTGTGGTCATATGCACCACTTT-ATCACTTTCTCA
*
4432153 TAATGC
129 T-ATTC
** * * *
4432159 AAGTACTCTTAATAGAGAAGTTAATCATTGTGGTCTTATGTGCCATTTCCGTTACTTTTCCCAAT
1 AAGTACTCTTAATAGAGAAGTCGATCATTGTGGTCTTATGCGCCACTTCCGTCACTTTTCCCAAT
* ** **
4432224 GCAAGTACTCTTAATAGAGAAGTGGATCATTAAGGTCATATGCGTCACTCTTATCACTTTCTCAT
66 GCAAGTACTCTTAATAGAGAAGTCGATCATTGTGGTCATATGCACCACT-TTATCACTTTCTCAT
4432289 -TTAC
130 ATT-C
* *
4432293 AAGTACTCTTAATGGAGAGGTCG
1 AAGTACTCTTAATAGAGAAGTCG
4432316 TTTGTTGTGG
Statistics
Matches: 237, Mismatches: 45, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
133 4 0.02
134 223 0.94
135 10 0.04
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (133 bp):
AAGTACTCTTAATAGAGAAGTCGATCATTGTGGTCTTATGCGCCACTTCCGTCACTTTTCCCAAT
GCAAGTACTCTTAATAGAGAAGTCGATCATTGTGGTCATATGCACCACTTTATCACTTTCTCATA
TTC
Found at i:4432535 original size:28 final size:28
Alignment explanation
Indices: 4432503--4432558 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
4432493 GCTTAAAGAA
* *
4432503 TAACATGTTTTTCATGTTGCATACCAAG
1 TAACATGTTCTTCATGCTGCATACCAAG
*
4432531 TAACATGTTCTTCATGCTGCATGCCAAG
1 TAACATGTTCTTCATGCTGCATACCAAG
4432559 ACTTTGTACG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (28 bp):
TAACATGTTCTTCATGCTGCATACCAAG
Found at i:4432791 original size:14 final size:14
Alignment explanation
Indices: 4432768--4433246 Score: 252
Period size: 13 Copynumber: 36.6 Consensus size: 14
4432758 CCATAAAACT
*
4432768 CTTTGCCACAGGTA
1 CTTTGGCACAGGTA
*
4432782 CTTTGGCACAAGTA
1 CTTTGGCACAGGTA
* **
4432796 C-CTGGCACAGACA
1 CTTTGGCACAGGTA
4432809 CTTTGGCACAGGTA
1 CTTTGGCACAGGTA
*
4432823 -TTTGGCACAAGTA
1 CTTTGGCACAGGTA
4432836 CTTTGGCACAGGTA
1 CTTTGGCACAGGTA
* * *
4432850 GC--TAGCACATGCA
1 -CTTTGGCACAGGTA
* *
4432863 TTTTGGCACAGATA
1 CTTTGGCACAGGTA
*
4432877 CTTTGGCATAGGTA
1 CTTTGGCACAGGTA
* * * *
4432891 C-CTAGCATAGGCA
1 CTTTGGCACAGGTA
4432904 CTTTGGCACAGGTA
1 CTTTGGCACAGGTA
4432918 C-TTGGCACAGGTA
1 CTTTGGCACAGGTA
* *
4432931 C-TTGGGATAGGTA
1 CTTTGGCACAGGTA
* *
4432944 -TTTAGC-CAAGTA
1 CTTTGGCACAGGTA
*
4432956 C-TTGTCACAGGTA
1 CTTTGGCACAGGTA
*
4432969 C-TTGGCACATGTA
1 CTTTGGCACAGGTA
* * *
4432982 CTTTCGCATAAGTA
1 CTTTGGCACAGGTA
* *
4432996 CTTTGACACAAGTA
1 CTTTGGCACAGGTA
*
4433010 C-TTGGCATAGGTA
1 CTTTGGCACAGGTA
* *
4433023 -ATTGGTA-AGGTA
1 CTTTGGCACAGGTA
* *
4433035 C-TTAGCATAGGTA
1 CTTTGGCACAGGTA
*
4433048 CTTTGGCATAGGTA
1 CTTTGGCACAGGTA
* *
4433062 -TTTGGCATAAGTA
1 CTTTGGCACAGGTA
* *
4433075 ATTTGGCACAGGCA
1 CTTTGGCACAGGTA
*
4433089 CTTT-----TGG--
1 CTTTGGCACAGGTA
*
4433096 CTTTGGCACAGGCA
1 CTTTGGCACAGGTA
4433110 C-TTGGCA-AGGTA
1 CTTTGGCACAGGTA
**
4433122 CTTTGGCACAAATA
1 CTTTGGCACAGGTA
* *
4433136 -TTTAGCATAGGTA
1 CTTTGGCACAGGTA
*
4433149 -TTTGGCATAGGTA
1 CTTTGGCACAGGTA
* *
4433162 TTTTGGCACAAGTA
1 CTTTGGCACAGGTA
4433176 C-TT-GCA-AGGTA
1 CTTTGGCACAGGTA
* *
4433187 -TTT-GAATAGGTA
1 CTTTGGCACAGGTA
* *
4433199 CTTTGACACAAGTA
1 CTTTGGCACAGGTA
*
4433213 C-TTGGCA-AGATA
1 CTTTGGCACAGGTA
4433225 CTTTGGCACAGGTA
1 CTTTGGCACAGGTA
4433239 CTTTGGCA
1 CTTTGGCA
4433247 ATAATACTTC
Statistics
Matches: 353, Mismatches: 81, Indels: 62
0.71 0.16 0.12
Matches are distributed among these distances:
7 4 0.01
9 2 0.01
11 8 0.02
12 35 0.10
13 163 0.46
14 140 0.40
15 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (14 bp):
CTTTGGCACAGGTA
Found at i:4432843 original size:41 final size:40
Alignment explanation
Indices: 4432774--4433091 Score: 220
Period size: 41 Copynumber: 8.0 Consensus size: 40
4432764 AACTCTTTGC
* **
4432774 CACAGGTACTTTGGCACAAGTACCTGGCACAGACACTTTGG
1 CACAGGTACTTTGGCACAAGTACTTGGCACAGGTAC-TTGG
*
4432815 CACAGGTA-TTTGGCACAAGTACTTTGGCACAGGTAGC-TAG
1 CACAGGTACTTTGGCACAAGTAC-TTGGCACAGGTA-CTTGG
* * * * * *
4432855 CACATGCATTTTGGCAC-AGATACTTTGGCATAGGTACCTAG
1 CACAGGTACTTTGGCACAAG-TAC-TTGGCACAGGTACTTGG
* * *
4432896 CATAGGCACTTTGGCACAGGTACTTGGCACAGGTACTTGG
1 CACAGGTACTTTGGCACAAGTACTTGGCACAGGTACTTGG
* * * *
4432936 GATAGGTA-TTTAGC-CAAGTACTTGTCACAGGTACTTGG
1 CACAGGTACTTTGGCACAAGTACTTGGCACAGGTACTTGG
* * * * *
4432974 CACATGTACTTTCGCATAAGTACTTTGACACAAGTACTTGG
1 CACAGGTACTTTGGCACAAGTAC-TTGGCACAGGTACTTGG
* * * * * *
4433015 CATAGGTA-ATTGGTA-AGGTACTTAGCATAGGTACTTTGG
1 CACAGGTACTTTGGCACAAGTACTTGGCACAGGTAC-TTGG
* * * *
4433054 CATAGGTA-TTTGGCATAAGTAATTTGGCACAGGCACTT
1 CACAGGTACTTTGGCACAAGT-ACTTGGCACAGGTACTT
4433092 TTGGCTTTGG
Statistics
Matches: 222, Mismatches: 43, Indels: 25
0.77 0.15 0.09
Matches are distributed among these distances:
38 36 0.16
39 32 0.14
40 60 0.27
41 92 0.41
42 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (40 bp):
CACAGGTACTTTGGCACAAGTACTTGGCACAGGTACTTGG
Found at i:4432933 original size:27 final size:27
Alignment explanation
Indices: 4432768--4433246 Score: 202
Period size: 27 Copynumber: 17.8 Consensus size: 27
4432758 CCATAAAACT
* *
4432768 CTTTGCCACAGGTACTTTGGCACAAGTA
1 CTTTGGCACAGGTAC-TTGGCACAGGTA
* **
4432796 C-CTGGCACAGACACTTTGGCACAGGTA
1 CTTTGGCACAGGTAC-TTGGCACAGGTA
*
4432823 -TTTGGCACAAGTACTTTGGCACAGGTA
1 CTTTGGCACAGGTAC-TTGGCACAGGTA
* * * * *
4432850 GC--TAGCACATGCATTTTGGCACAGATA
1 -CTTTGGCACAGGTA-CTTGGCACAGGTA
* * * * *
4432877 CTTTGGCATAGGTACCTAGCATAGGCA
1 CTTTGGCACAGGTACTTGGCACAGGTA
4432904 CTTTGGCACAGGTACTTGGCACAGGTA
1 CTTTGGCACAGGTACTTGGCACAGGTA
* * * * *
4432931 C-TTGGGATAGGTATTTAGC-CAAGTA
1 CTTTGGCACAGGTACTTGGCACAGGTA
* *
4432956 C-TTGTCACAGGTACTTGGCACATGTA
1 CTTTGGCACAGGTACTTGGCACAGGTA
* * * * *
4432982 CTTTCGCATAAGTACTTTGACACAAGTA
1 CTTTGGCACAGGTAC-TTGGCACAGGTA
* * *
4433010 C-TTGGCATAGGTAATTGGTA-AGGTA
1 CTTTGGCACAGGTACTTGGCACAGGTA
* * *
4433035 C-TTAGCATAGGTACTTTGGCATAGGTA
1 CTTTGGCACAGGTAC-TTGGCACAGGTA
* * * *
4433062 -TTTGGCATAAGTAATTTGGCACAGGCACTTTTGG
1 CTTTGGCACAGGT-ACTTGGCACAGG------T-A
*
4433096 CTTTGGCACAGGCACTTGGCA-AGGTA
1 CTTTGGCACAGGTACTTGGCACAGGTA
** * * *
4433122 CTTTGGCACAAATATTTAGCATAGGTA
1 CTTTGGCACAGGTACTTGGCACAGGTA
* * *
4433149 -TTTGGCATAGGTATTTTGGCACAAGTA
1 CTTTGGCACAGGTA-CTTGGCACAGGTA
* * *
4433176 C-TT-GCA-AGGTA-TTTGAATAGGTA
1 CTTTGGCACAGGTACTTGGCACAGGTA
* * *
4433199 CTTTGACACAAGTACTTGGCA-AGATA
1 CTTTGGCACAGGTACTTGGCACAGGTA
4433225 CTTTGGCACAGGTACTTTGGCA
1 CTTTGGCACAGGTAC-TTGGCA
4433247 ATAATACTTC
Statistics
Matches: 335, Mismatches: 87, Indels: 59
0.70 0.18 0.12
Matches are distributed among these distances:
23 9 0.03
24 2 0.01
25 42 0.13
26 80 0.24
27 162 0.48
28 20 0.06
33 4 0.01
34 7 0.02
35 9 0.03
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (27 bp):
CTTTGGCACAGGTACTTGGCACAGGTA
Found at i:4433209 original size:37 final size:39
Alignment explanation
Indices: 4433117--4433246 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
4433107 GCACTTGGCA
* * *
4433117 AGGTACTTTGGCACAAATATTTAGCATAGGTATTTGGCAT
1 AGGTACTTTGGCACAAGTACTTAGCA-AGGTATTTGGAAT
*
4433157 AGGTATTTTGGCACAAGTACTT-GCAAGGTATTT-GAAT
1 AGGTACTTTGGCACAAGTACTTAGCAAGGTATTTGGAAT
* * * * *
4433194 AGGTACTTTGACACAAGTACTTGGCAAGATACTTTGGCAC
1 AGGTACTTTGGCACAAGTACTTAGCAAGGTA-TTTGGAAT
4433234 AGGTACTTTGGCA
1 AGGTACTTTGGCA
4433247 ATAATACTTC
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
37 23 0.30
38 15 0.19
39 6 0.08
40 33 0.43
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (39 bp):
AGGTACTTTGGCACAAGTACTTAGCAAGGTATTTGGAAT
Found at i:4435485 original size:22 final size:22
Alignment explanation
Indices: 4435443--4435486 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4435433 CAGCACAACC
* *
4435443 TAAGCCTTAAATGCATGAAAAG
1 TAAGCATTAAATGCATCAAAAG
*
4435465 TAAGCATTAAATGCGTCAAAAG
1 TAAGCATTAAATGCATCAAAAG
4435487 CTGATAGTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.23
Consensus pattern (22 bp):
TAAGCATTAAATGCATCAAAAG
Found at i:4439586 original size:28 final size:28
Alignment explanation
Indices: 4439516--4439592 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
4439506 TACAACACGC
* * * *
4439516 GCCACTAA-TAGTGGACTTCGAATAGGT
1 GCCACTAACTAGTGGGCTTTGAAGAGAT
*
4439543 GCCACTGACTAGTGGGCTTTGAAGAGAT
1 GCCACTAACTAGTGGGCTTTGAAGAGAT
*
4439571 GCCACTAACTAGTGGGATTTGA
1 GCCACTAACTAGTGGGCTTTGA
4439593 GAAGGGATTC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 7 0.17
28 35 0.83
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (28 bp):
GCCACTAACTAGTGGGCTTTGAAGAGAT
Found at i:4440888 original size:12 final size:11
Alignment explanation
Indices: 4440873--4440911 Score: 62
Period size: 10 Copynumber: 3.5 Consensus size: 11
4440863 CCCTTTTTCC
4440873 TTTTTTTGTGT
1 TTTTTTTGTGT
4440884 GTTTTTTTGT-T
1 -TTTTTTTGTGT
4440895 TTTTTTTGTGT
1 TTTTTTTGTGT
4440906 TTTTTT
1 TTTTTT
4440912 AAGAAGGACG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.35
11 8 0.31
12 9 0.35
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (11 bp):
TTTTTTTGTGT
Found at i:4440896 original size:20 final size:20
Alignment explanation
Indices: 4440873--4440911 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4440863 CCCTTTTTCC
4440873 TTTTTTTGTGTGTTTTTTTG
1 TTTTTTTGTGTGTTTTTTTG
*
4440893 TTTTTTTTTGTGTTTTTTT
1 TTTTTTTGTGTGTTTTTTT
4440912 AAGAAGGACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (20 bp):
TTTTTTTGTGTGTTTTTTTG
Found at i:4445971 original size:52 final size:52
Alignment explanation
Indices: 4445893--4446021 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
4445883 CGAAATATGA
* * *
4445893 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGACACATCTGGGC
* *
4445945 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGACATATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGACACATCTGGGC
4445997 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
4446022 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGACACATCTGGGC
Found at i:4446035 original size:20 final size:20
Alignment explanation
Indices: 4446010--4446074 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
4446000 TTTGCCTGCA
4446010 TGTATCGATACAAAGATCAG
1 TGTATCGATACAAAGATCAG
4446030 TGTATCGATAC----A--A-
1 TGTATCGATACAAAGATCAG
4446043 TGTATCGATACAAAGATCAG
1 TGTATCGATACAAAGATCAG
4446063 TGTATCGATACA
1 TGTATCGATACA
4446075 TTTGAGTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 1 0.03
17 1 0.03
19 1 0.03
20 23 0.61
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (20 bp):
TGTATCGATACAAAGATCAG
Found at i:4446048 original size:13 final size:13
Alignment explanation
Indices: 4446030--4446055 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4446020 CAAAGATCAG
4446030 TGTATCGATACAA
1 TGTATCGATACAA
4446043 TGTATCGATACAA
1 TGTATCGATACAA
4446056 AGATCAGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4446051 original size:33 final size:33
Alignment explanation
Indices: 4446009--4446074 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
4445999 ATTTGCCTGC
4446009 ATGTATCGATACAAAGATCAGTGTATCGATACA
1 ATGTATCGATACAAAGATCAGTGTATCGATACA
4446042 ATGTATCGATACAAAGATCAGTGTATCGATACA
1 ATGTATCGATACAAAGATCAGTGTATCGATACA
4446075 TTTGAGTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (33 bp):
ATGTATCGATACAAAGATCAGTGTATCGATACA
Found at i:4446152 original size:33 final size:33
Alignment explanation
Indices: 4446115--4446181 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4446105 AGTAGCTTAA
4446115 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
4446148 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
4446181 A
1 A
4446182 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:4446155 original size:13 final size:13
Alignment explanation
Indices: 4446137--4446161 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4446127 CAAAAAAATA
4446137 TGTATCGATACAT
1 TGTATCGATACAT
4446150 TGTATCGATACA
1 TGTATCGATACA
4446162 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4456319 original size:70 final size:68
Alignment explanation
Indices: 4456235--4456371 Score: 213
Period size: 70 Copynumber: 2.0 Consensus size: 68
4456225 TCAGAAGAAT
*
4456235 GGGGTTGGAATATCCCCGAAAATGATAATTTGG-TCAAAATAAGACTTTAAATTTTGATGAGTTT
1 GGGGTTAGAATATCCCCGAAAATGATAATTTGGAT-AAAATAAGA-TTTAAATTTTGATGAG-TT
4456299 AAAAAC
63 AAAAAC
* *
4456305 GGGGTTAGAGTATCCCCGACAATGATAATTTGGATAAAATAAGATTTAAATTTTGATGAGTTAAA
1 GGGGTTAGAATATCCCCGAAAATGATAATTTGGATAAAATAAGATTTAAATTTTGATGAGTTAAA
4456370 AA
66 AA
4456372 GAAACGGGAT
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
68 7 0.11
69 16 0.25
70 39 0.62
71 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.31
Consensus pattern (68 bp):
GGGGTTAGAATATCCCCGAAAATGATAATTTGGATAAAATAAGATTTAAATTTTGATGAGTTAAA
AAC
Found at i:4456485 original size:99 final size:99
Alignment explanation
Indices: 4456314--4456518 Score: 267
Period size: 99 Copynumber: 2.1 Consensus size: 99
4456304 CGGGGTTAGA
*
4456314 GTATCCCCGACAATGATAATTTGGATAAAATAAGATTTAAATTTTGATGAGTTAAAAAGAAACGG
1 GTATCCCCGACAATGATAATTTGGATAAAATAAGATTTAAATTTCGATGAGTTAAAAAGAAACGG
* *
4456379 GATTGGAGTATTCTCTC-GAAGGAATA-TGGTTGGT
66 GATTGGAGTATCCCCTCAG-AGGAATAGT-GTTGGT
* * * *
4456413 GTATCCCTGACAATGATAATTTGG-TCGAAATAAGACTTTAAATTTCGATGAGTTTAAAA-AAAT
1 GTATCCCCGACAATGATAATTTGGAT-AAAATAAGA-TTTAAATTTCGATGAGTTAAAAAGAAAC
4456476 GAGG-TTGGAGTATCCCCTCAGAGGAATAGTGTTGGT
64 G-GGATTGGAGTATCCCCTCAGAGGAATAGTGTTGGT
4456512 GTATCCC
1 GTATCCC
4456519 GATAAACAAA
Statistics
Matches: 94, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
98 1 0.01
99 68 0.72
100 25 0.27
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (99 bp):
GTATCCCCGACAATGATAATTTGGATAAAATAAGATTTAAATTTCGATGAGTTAAAAAGAAACGG
GATTGGAGTATCCCCTCAGAGGAATAGTGTTGGT
Found at i:4458745 original size:16 final size:17
Alignment explanation
Indices: 4458719--4458767 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 17
4458709 ATATTGAATA
*
4458719 TTATTATTTTTAATTTT
1 TTATGATTTTTAATTTT
4458736 TT-TGATTTTTAATTTT
1 TTATGATTTTTAATTTT
*
4458752 TTATTA-TTTTAATTTT
1 TTATGATTTTTAATTTT
4458768 ATATATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 25 0.86
17 4 0.14
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (17 bp):
TTATGATTTTTAATTTT
Done.